Variant report

Variant	rs9816926
Chromosome Location	chr3:111522258-111522259
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111521862..111524115-chr3:111526095..111528698,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10934110	0.95[JPT][hapmap]
rs12637888	0.95[JPT][hapmap]
rs4472023	0.95[JPT][hapmap]
rs4610200	0.83[JPT][hapmap]
rs6438015	0.87[JPT][hapmap]
rs6794180	0.83[JPT][hapmap]
rs6809414	0.83[JPT][hapmap]
rs9288930	0.83[JPT][hapmap]
rs9814037	0.83[JPT][hapmap]
rs9817777	0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9816926	CD200R1	cis	cerebellum	SCAN

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111509400-111525800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:111514600-111533200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:111518800-111522400	Enhancers	Liver	Liver
4	chr3:111518800-111523200	Enhancers	HMEC	breast
5	chr3:111518800-111523600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:111519000-111522800	Enhancers	Adipose Nuclei	Adipose
7	chr3:111519000-111523400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:111519200-111523200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:111519200-111526200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:111519200-111526400	Weak transcription	Pancreas	Pancrea
11	chr3:111519400-111522400	Enhancers	Fetal Lung	lung
12	chr3:111519600-111522400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr3:111519800-111523400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:111520000-111523000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:111520000-111523200	Enhancers	NHLF	lung
16	chr3:111520000-111525800	Weak transcription	Fetal Intestine Large	intestine
17	chr3:111520600-111522600	Enhancers	Pancreatic Islets	Pancreatic Islet
18	chr3:111520600-111522800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:111520600-111522800	Flanking Active TSS	A549	lung
20	chr3:111520600-111523000	Enhancers	NH-A	brain
21	chr3:111520800-111522400	Enhancers	Placenta	Placenta
22	chr3:111520800-111523000	Enhancers	Rectal Smooth Muscle	rectum
23	chr3:111520800-111523000	Enhancers	HSMMtube	muscle
24	chr3:111521000-111522600	Enhancers	Fetal Heart	heart
25	chr3:111521000-111522600	Enhancers	Fetal Stomach	stomach
26	chr3:111521000-111522600	Enhancers	Stomach Smooth Muscle	stomach
27	chr3:111521000-111526400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr3:111521200-111523000	Enhancers	HSMM	muscle
29	chr3:111521200-111531000	Weak transcription	Small Intestine	intestine
30	chr3:111521400-111527200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr3:111521600-111522600	Flanking Active TSS	Hela-S3	cervix
32	chr3:111521600-111523000	Enhancers	NHDF-Ad	bronchial
33	chr3:111521600-111523600	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr3:111521800-111522400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr3:111521800-111523400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:111521800-111527000	Weak transcription	Fetal Kidney	kidney
37	chr3:111521800-111527800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr3:111521800-111527800	Weak transcription	Stomach Mucosa	stomach
39	chr3:111522000-111522400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:111522000-111522400	Enhancers	Fetal Muscle Leg	muscle
41	chr3:111522000-111522600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:111522000-111522600	Enhancers	Left Ventricle	heart
43	chr3:111522000-111528600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr3:111522200-111522400	Enhancers	Esophagus	oesophagus
45	chr3:111522200-111522400	Enhancers	Ovary	ovary
46	chr3:111522200-111522600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr3:111522200-111522600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr3:111522200-111522600	Enhancers	Right Atrium	heart
49	chr3:111522200-111522600	Flanking Active TSS	NHEK	skin
50	chr3:111522200-111522600	Flanking Active TSS	Osteobl	bone

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